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Hu J, Liu CG, Zhang WK, Liu XW, Dong B, Wang ZD, Xie YG, Hua ZS, Liu XW. Decomposing the molecular complexity and transformation of dissolved organic matter for innovative anaerobic bioprocessing. Nat Commun 2025; 16:4859. [PMID: 40414853 DOI: 10.1038/s41467-025-60240-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2024] [Accepted: 05/20/2025] [Indexed: 05/27/2025] Open
Abstract
The sustainable transformation and management of dissolved organic matter (DOM) are crucial for advancing organic waste treatment towards resource-oriented processes. However, the intricate molecular complexity of DOM poses significant challenges, impeding a comprehensive understanding of the underlying biochemical processes. Here, we focus on the chemical "dark matter" mining using ultra-high resolution mass spectrometry technologies to elucidate the molecular diversity and transformation in anaerobic bioprocessing of food waste. We developed an analytical framework that reveals the persistence of DOM in the final effluent is mainly determined by its molecular properties, such as carbon chain length, aromaticity, unsaturation, and redox states. Our in-depth characterization and quantitative analysis of key biochemical reactions unveils the evolution of DOM composition, providing valuable insights into the targeted conversion of persistent molecules toward full utilization. Additionally, we establish a correlation between the redox state and energy density of a broad range of DOM molecules, enabling us to comprehend and evaluate their biodegradability. These insights enhance the mechanistic understanding of DOM transformation, guiding the rational design and regulation of sustainable organic waste treatment strategies.
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Affiliation(s)
- Jun Hu
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Chuan-Guo Liu
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Wen-Kai Zhang
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Xue-Wen Liu
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Bin Dong
- State Key Laboratory of Fire Science, University of Science and Technology of China, Hefei, 230026, China
| | - Zhan-Dong Wang
- State Key Laboratory of Fire Science, University of Science and Technology of China, Hefei, 230026, China
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui, 230029, PR China
| | - Yuan-Guo Xie
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Zheng-Shuang Hua
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China
| | - Xian-Wei Liu
- Chinese Academy of Sciences Key Laboratory of Urban Pollutant Conversion, Department of Environmental Science and Engineering, University of Science and Technology of China, Hefei, 230026, China.
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2
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Patsis AC, Schuler CJ, Toner BM, Santelli CM, Sheik CS. The potential for coupled organic and inorganic sulfur cycles across the terrestrial deep subsurface biosphere. Nat Commun 2025; 16:3827. [PMID: 40268922 PMCID: PMC12019592 DOI: 10.1038/s41467-025-59241-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2024] [Accepted: 04/15/2025] [Indexed: 04/25/2025] Open
Abstract
Organosulfur compounds (OrgS) are fundamental components of life's biomass, yet the cycling of these compounds in the terrestrial deep subsurface, one of Earth's largest ecosystems, has gone relatively unexplored. Here, we show that all subsurface microbial genomes reconstructed from Soudan Underground Mine State Park have the capacity to cycle organic sulfur species. Our findings suggest that OrgS degradation may be an integral link between the organic and inorganic sulfur cycle via the production of sulfite and sulfide. Furthermore, despite isolation from surface ecosystems, most Soudan microorganisms retained genes for dimethylsulfoniopropionate and taurine biosynthesis. Metagenomic analyses of an additional 54 deep subsurface sites spanning diverse lithologies revealed the capacity for OrgS cycling to be widespread, occurring in 89% of assembled metagenomes. Our results indicate that consideration of OrgS cycling may be necessary to accurately constrain sulfur fluxes, discern the energetic limits of deep life, and determine the impact of deep subsurface biogeochemical sulfur cycling on greater Earth system processes.
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Affiliation(s)
- Amanda C Patsis
- Department of Earth and Environmental Sciences, University of Minnesota - Twin Cities, Minneapolis, MN, USA
- BioTechnology Institute, University of Minnesota - Twin Cities, St. Paul, MN, USA
| | - Christopher J Schuler
- Department of Earth and Environmental Sciences, University of Minnesota - Twin Cities, Minneapolis, MN, USA
- BioTechnology Institute, University of Minnesota - Twin Cities, St. Paul, MN, USA
| | - Brandy M Toner
- Department of Soil, Water, and Climate, University of Minnesota - Twin Cities, St. Paul, MN, USA
| | - Cara M Santelli
- Department of Earth and Environmental Sciences, University of Minnesota - Twin Cities, Minneapolis, MN, USA.
- BioTechnology Institute, University of Minnesota - Twin Cities, St. Paul, MN, USA.
| | - Cody S Sheik
- Biology Department, University of Minnesota Duluth, Duluth, MN, USA.
- Large Lakes Observatory, University of Minnesota Duluth, Duluth, MN, USA.
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3
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Heinze BM, Schwab VF, Trumbore SE, Schroeter SA, Xu X, Chaudhari NM, Küsel K. Old but not ancient: Rock-leached organic carbon drives groundwater microbiomes. THE SCIENCE OF THE TOTAL ENVIRONMENT 2025; 959:178212. [PMID: 39721524 DOI: 10.1016/j.scitotenv.2024.178212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2024] [Revised: 12/17/2024] [Accepted: 12/18/2024] [Indexed: 12/28/2024]
Abstract
More than 90% of earth's microbial biomass resides in the continental subsurface, where sedimentary rocks provide the largest source of organic carbon (C). While many studies indicate microbial utilization of fossil C sources, the extent to which rock-organic C is driving microbial activities in aquifers remains largely unknown. Here we incubated oxic and anoxic groundwater with crushed carbonate rocks from the host aquifer and an outcrop rock of the unsaturated zone characterized by higher organic C content, and compared the natural abundance of radiocarbon (14C) of available C pools and microbial biomarkers. The ancient rocks surprisingly released organic substances with up to 72.6 ± 0.3% modern C into the groundwater, suggesting leachable fresh organic material from surface transport was preserved within rock fractures. Over half of the rock-leached compounds were also found in the original groundwater dissolved organic carbon (DOC), indicating in situ release of material stored in rock fractures through weathering processes. In addition to aliphatic and aromatic hydrocarbons, rock-leachates were rich in lipids, peptides, and carbohydrates. Radiocarbon analysis of phospholipid-derived fatty acids showed a rapid microbial response to this 'younger' organic material, comprising up to 31% (anoxic) and 51% (oxic) of their biomass C from the rock-leachate after 18 days of incubation. Predictive functional profiling of rock-enriched taxa, including species of Desulfosporosinus, Ferribacterium and Rhodoferax, also suggested metabolic potential for aliphatic and aromatic hydrocarbon degradation. PLFAs of the original groundwater were highly 14C-depleted, indicating utilization of a mixture of fossil and 'younger' C sources. Our findings suggest that carbonate rocks act as temporal sink for 'younger' organic matter, that leaches with fossil hydrocarbons from sedimentary rocks, driving microbial metabolism in subsurface ecosystems.
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Affiliation(s)
- Beatrix M Heinze
- Aquatic Geomicrobiology, Institute of Biodiversity, Friedrich Schiller University, Jena, Germany; Department Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany
| | - Valérie F Schwab
- Department Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany
| | - Susan E Trumbore
- Department Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany; Department of Earth System Science, University of California, Irvine, CA, USA; Cluster of Excellence Balance of the Microverse, Friedrich Schiller University Jena, Jena, Germany
| | - Simon A Schroeter
- Department Biogeochemical Processes, Max-Planck-Institute for Biogeochemistry, Jena, Germany
| | - Xiaomei Xu
- Department of Earth System Science, University of California, Irvine, CA, USA
| | | | - Kirsten Küsel
- Aquatic Geomicrobiology, Institute of Biodiversity, Friedrich Schiller University, Jena, Germany; Cluster of Excellence Balance of the Microverse, Friedrich Schiller University Jena, Jena, Germany; German Center for Integrative Biodiversity Research (iDiv) Halle-Jena_Leipzig, Germany.
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4
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Ford SE, Slater GF, Engel K, Warr O, Lollar GS, Brady A, Neufeld JD, Lollar BS. Deep terrestrial indigenous microbial community dominated by Candidatus Frackibacter. COMMUNICATIONS EARTH & ENVIRONMENT 2024; 5:795. [PMID: 39742000 PMCID: PMC11683007 DOI: 10.1038/s43247-024-01966-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/02/2024] [Accepted: 12/16/2024] [Indexed: 01/03/2025]
Abstract
Characterizing deep subsurface microbial communities informs our understanding of Earth's biogeochemistry as well as the search for life beyond the Earth. Here we characterized microbial communities within the Kidd Creek Observatory subsurface fracture water system with mean residence times of hundreds of millions to over one billion years. 16S rRNA analysis revealed that biosamplers well isolated from the mine environment were dominated by a putatively anaerobic and halophilic bacterial species from the Halobacteroidaceae family, Candidatus Frackibacter. Contrastingly, biosamplers and biofilms exposed to the mine environment contained aerobic Sphingomonas taxa. δ13C values of phospholipid fatty acids and putative functional predictions derived from 16S rRNA gene profiles, imply Candidatus Frackibacter may use carbon derived from ancient carbon-rich layers common in these systems. These results indicate that Candidatus Frackibacter is not unique to hydraulically fracked sedimentary basins but rather may be indigenous to a wide range of deep, saline groundwaters hosted in carbon-rich rocks.
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Affiliation(s)
- Sian E. Ford
- School of Earth, Environment and Society, McMaster University, Hamilton, ON Canada
| | - Greg F. Slater
- School of Earth, Environment and Society, McMaster University, Hamilton, ON Canada
| | | | - Oliver Warr
- Department of Earth Sciences, University of Toronto, Toronto, ON Canada
- Department of Earth and Environmental Sciences, University of Ottawa, Advanced Research Complex, Ottawa, ON Canada
| | - Garnet S. Lollar
- Department of Earth Sciences, University of Toronto, Toronto, ON Canada
| | - Allyson Brady
- School of Earth, Environment and Society, McMaster University, Hamilton, ON Canada
- Department of Biology, Carlton University, Ottawa, ON Canada
| | - Josh D. Neufeld
- Department of Earth Sciences, University of Toronto, Toronto, ON Canada
| | - Barbara Sherwood Lollar
- University of Waterloo, Waterloo, ON Canada
- Institut de Physique du Globe de Paris (IPGP) Université Paris Cité, Paris, France
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5
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An S, Du Y, Huang X, Lu Y, Mao Z, Shi L, Cotner JB, Xing P, Zhang Y. Long-Term Photochemical and Microbial Alterations Lead to the Compositional Convergence of Algal and Terrestrial Dissolved Organic Matter. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:18765-18776. [PMID: 39392792 DOI: 10.1021/acs.est.4c07307] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/13/2024]
Abstract
Lakes are expected to become more active in processing dissolved organic matter (DOM), but the fate of DOM with different origins remains poorly constrained. We conducted long-term incubation experiments (∼1 year) with sole light, sole microbial, and combined light and microbial treatments using DOM from algal and terrestrial sources (DOMa and DOMt, respectively). Fourier transform ion cyclotron resonance mass spectrometry and 16s rRNA were used to analyze the DOM molecular composition and bacterial community, respectively. We observed that DOMa and DOMt converged toward a similar composition under the combined light and microbial treatment, driven by the removal of source-specific compositions along with the production of refractory, carboxylic-rich alicyclic molecules (CRAM). For CRAM enrichment, microbial processes played a greater role for DOMa, while phototransformation was more important for DOMt. The co-occurrence patterns between DOM molecules and bacteria showed that DOM molecular composition influenced the bacterial community. More complex DOM-bacteria interactions were observed for DOMt compared to DOMa, suggesting that greater bacterial cooperation was necessary for transforming DOMt. Collectively, these findings offer new insights into the mechanisms underlying the uniformity of DOM from various sources through prolonged environmental transformations in lakes.
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Affiliation(s)
- ShiLin An
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- University of Chinese Academy of Sciences, Nanjing (UCASNJ), Nanjing 211135, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
| | - YingXun Du
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
| | - XiuLin Huang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
| | - YueHan Lu
- Molecular Eco-Geochemistry (MEG) Laboratory, Department of Geological Sciences, The University of Alabama, Tuscaloosa 35487, Alabama, United States
| | - ZhenDu Mao
- Center for Evolution and Conservation Biology, Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou 511458, China
| | - LiMei Shi
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
| | - James B Cotner
- Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul 55108, Minnesota, United States
| | - Peng Xing
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
| | - YunLin Zhang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- University of Chinese Academy of Sciences, Nanjing (UCASNJ), Nanjing 211135, China
- Key Laboratory of Lake and Watershed Science for Water Security, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing 210008, China
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6
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Westmeijer G, van Dam F, Kietäväinen R, González-Rosales C, Bertilsson S, Drake H, Dopson M. Candidatus Desulforudis audaxviator dominates a 975 m deep groundwater community in central Sweden. Commun Biol 2024; 7:1332. [PMID: 39406897 PMCID: PMC11480212 DOI: 10.1038/s42003-024-07027-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2023] [Accepted: 10/07/2024] [Indexed: 10/19/2024] Open
Abstract
The continental bedrock contains groundwater-bearing fractures that are home to microbial populations that are vital in mediating the Earth's biogeochemical cycles. However, their diversity is poorly understood due to the difficulty of obtaining samples from this environment. Here, a groundwater-bearing fracture at 975 m depth was isolated by employing packers in order to characterize the microbial community via metagenomes combined with prokaryotic and eukaryotic marker genes (16S and 18S ribosomal RNA gene). Genome-resolved analyses revealed a community dominated by sulfate-reducing Bacillota, predominantly represented by Candidatus Desulforudis audaxviator and with Wood-Ljungdahl as the most prevalent pathway for inorganic carbon fixation. Moreover, the eukaryotic community had a considerable diversity and was comprised of mainly flatworms, chlorophytes, crustaceans, ochrophytes, and fungi. These findings support the important role of the Bacillota, with the sulfate reducer Candidatus Desulforudis audaxviator as its main representative, as primary producers in the often energy-limited groundwaters of the continental subsurface.
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Affiliation(s)
- George Westmeijer
- Centre for Ecology and Evolution in Microbial model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, Kalmar, Sweden.
- Department of Chemistry, Umeå University, Umeå, Sweden.
| | - Femke van Dam
- Department of Biology and Environmental Sciences, Linnaeus University, Stuvaregatan 4, Kalmar, Sweden
| | - Riikka Kietäväinen
- Geological Survey of Finland, Espoo, Finland
- Department of Geosciences and Geography, University of Helsinki, Helsinki, Finland
| | - Carolina González-Rosales
- Centre for Ecology and Evolution in Microbial model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, Kalmar, Sweden
| | - Stefan Bertilsson
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Henrik Drake
- Department of Biology and Environmental Sciences, Linnaeus University, Stuvaregatan 4, Kalmar, Sweden
| | - Mark Dopson
- Centre for Ecology and Evolution in Microbial model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, Kalmar, Sweden
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7
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Xiong Y, Du Y, Liu M, Deng Y, Shi H, Gan Y, Wang Y. Revealing degradation pathways of soluble and dissolved organic matter in alluvial-lacustrine aquifer systems impacted by high levels of geogenic ammonium. WATER RESEARCH 2024; 264:122215. [PMID: 39154536 DOI: 10.1016/j.watres.2024.122215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2024] [Revised: 07/24/2024] [Accepted: 08/03/2024] [Indexed: 08/20/2024]
Abstract
The excessive presence of geogenic ammonium (NH4+) in groundwater poses a global environmental concern, commonly linked to the degradation of nitrogen-containing dissolved organic matter (DOM). However, there is a gap in systematic studies on the combination of soluble organic matter (SOM) in sediments and DOM in groundwater, with few indoor incubation experiments to validate their degradation pathways. This study utilized ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry to analyze the molecular characteristics of DOM and SOM in aquifer systems affected by geogenic NH4+. Subsequently, indoor incubation experiments spanning up to 140 d were conducted to verify the degradation pathways. The experimental results revealed a two-phase degradation process for both the DOM and SOM. The initial stage was characterized by the degradation of aliphatic compounds (ALC) with the production of polyphenols (PPE) and highly unsaturated compounds (HUC). The second stage was dominated by the degradation of PPE and HUC, accompanied by the re-consumption of some ALC, while more recalcitrant HUC persisted. Notably, the first stage of SOM degradation exceeded that of DOM degradation, indicating that SOM exhibited greater resistance to aging. This phenomenon may be attributed to a wider range of active enzymes in sediments, the rapid replenishment of SOM by organic matter in sediments, or the accelerated degradation of DOM. The experimental results aligned with the molecular characterization of DOM and SOM in actual aquifer systems. It is hypothesized that NH4+ produced through the direct mineralization of SOM may contribute more to the enrichment of NH4+ in groundwater than that produced through the mineralization of DOM. This study is the first to analyze DOM and SOM together in aquifer systems and validate their degradation pathways through incubation experiments, thereby providing novel insights into the enrichment of geogenic NH4+ in groundwater.
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Affiliation(s)
- Yaojin Xiong
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
| | - Yao Du
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China.
| | - Meihui Liu
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
| | - Yamin Deng
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
| | - Huanhuan Shi
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
| | - Yiqun Gan
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
| | - Yanxin Wang
- Key Laboratory of Groundwater Quality and Health (China University of Geosciences), Ministry of Education, Wuhan 430078, China; State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, School of Environmental Studies, Wuhan 430078, China
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Niu Z, Chen C, Ruan Q, Duan Y, Liu S, Chen D. Plant Root Secretion Alleviates Carbamate-Induced Molecular Alterations of Dissolved Organic Matter. TOXICS 2024; 12:654. [PMID: 39330581 PMCID: PMC11435816 DOI: 10.3390/toxics12090654] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2024] [Revised: 08/30/2024] [Accepted: 09/01/2024] [Indexed: 09/28/2024]
Abstract
Studying the interaction between pesticide contamination in the plant system and the dissolved organic matter (DOM) composition is important to understand the impact of pesticides and plants on the ecological function of DOM. The present study investigated the effects of DOM on the bioaccumulation and biotransformation of carbamates in plants, carbamate exposure on DOM composition, and plant root secretion on the interaction between DOM and carbamates. The concentrations of carbamates and their metabolites in living cabbage plants were continuously tracked through an in vivo analytical method. The presence of DOM was found to reduce the highest bioconcentrations and shorten the time it took to reach the highest bioaccumulated amounts of isoprocarb and carbofuran in plants, while it showed no significant effect on the uptake behavior of carbaryl. DOM profiling results indicated that carbamate exposure substantially decreased the number and molecular diversity of DOM. Notably, plant root secretion alleviated carbamate-induced DOM molecular alterations by inducing a higher turnover rate of DOM compared to that in the uncontaminated group, highlighting the role of plants in mitigating the effects of exogenous pesticide exposure on DOM composition and maintaining DOM molecular homeostasis.
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Affiliation(s)
- Zihan Niu
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment and Climate, Jinan University, Guangzhou 511443, China
| | - Chao Chen
- Guangdong Provincial Key Laboratory of Chemical Measurement and Emergency Test Technology, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), Guangzhou 510070, China
| | - Qijun Ruan
- Guangdong Provincial Key Laboratory of Chemical Measurement and Emergency Test Technology, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), Guangzhou 510070, China
| | - Yingming Duan
- China College of Resources and Environmental Engineering, Guizhou University, Guiyang 550025, China
| | - Shuqin Liu
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment and Climate, Jinan University, Guangzhou 511443, China
- Guangdong Provincial Key Laboratory of Chemical Measurement and Emergency Test Technology, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), Guangzhou 510070, China
| | - Da Chen
- Guangdong Key Laboratory of Environmental Pollution and Health, School of Environment and Climate, Jinan University, Guangzhou 511443, China
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9
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Park SY, Zhang Y, Kwon JS, Kwon MJ. Multi-approach assessment of groundwater biogeochemistry: Implications for the site characterization of prospective spent nuclear fuel repository sites. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 926:171918. [PMID: 38522553 DOI: 10.1016/j.scitotenv.2024.171918] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2024] [Revised: 03/10/2024] [Accepted: 03/21/2024] [Indexed: 03/26/2024]
Abstract
The disposal of spent nuclear fuel in deep subsurface repositories using multi-barrier systems is considered to be the most promising method for preventing radionuclide leakage. However, the stability of the barriers can be affected by the activities of diverse microbes in subsurface environments. Therefore, this study investigated groundwater geochemistry and microbial populations, activities, and community structures at three potential spent nuclear fuel repository construction sites. The microbial analysis involved a multi-approach including both culture-dependent, culture-independent, and sequence-based methods for a comprehensive understanding of groundwater biogeochemistry. The results from all three sites showed that geochemical properties were closely related to microbial population and activities. Total number of cells estimates were strongly correlated to high dissolved organic carbon; while the ratio of adenosine-triphosphate:total number of cells indicated substantial activities of sulfate reducing bacteria. The 16S rRNA gene sequencing revealed that the microbial communities differed across the three sites, with each featuring microbes performing distinctive functions. In addition, our multi-approach provided some intriguing findings: a site with a low relative abundance of sulfate reducing bacteria based on the 16S rRNA gene sequencing showed high populations during most probable number incubation, implying that despite their low abundance, sulfate reducing bacteria still played an important role in sulfate reduction within the groundwater. Moreover, a redundancy analysis indicated a significant correlation between uranium concentrations and microbial community compositions, which suggests a potential impact of uranium on microbial community. These findings together highlight the importance of multi-methodological assessments in better characterizing groundwater biogeochemical properties for the selection of potential spent nuclear fuel disposal sites.
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Affiliation(s)
- Su-Young Park
- Department of Earth and Environmental Sciences, Korea University, Seoul, Republic of Korea
| | - Yidan Zhang
- Department of Earth and Environmental Sciences, Korea University, Seoul, Republic of Korea
| | - Jang-Soon Kwon
- Korea Atomic Energy Research Institute, Daejeon, Republic of Korea
| | - Man Jae Kwon
- Department of Earth and Environmental Sciences, Korea University, Seoul, Republic of Korea.
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10
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Xu L, Hu Q, Liu Z, Jian M, Peng Y, Shen R, Liao W, Zhong A. Hydrological alteration drives chemistry of dissolved organic matter in the largest freshwater lake of China (Poyang Lake). WATER RESEARCH 2024; 251:121154. [PMID: 38271743 DOI: 10.1016/j.watres.2024.121154] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Revised: 01/15/2024] [Accepted: 01/16/2024] [Indexed: 01/27/2024]
Abstract
As the largest reactive organic carbon pool, dissolved organic matter (DOM) plays an important role in various biogeochemical processes in lake ecosystems. Recently, climate change-induced extreme events (e.g., floods and droughts) have significantly modified the hydrological patterns of lakes worldwide, and regulated the quality and quantity of DOM. However, the responses of DOM chemistry to hydrological alteration in lakes remain poorly understood. Here we investigated the influences of hydrological alteration on sources, composition, and characteristics of DOM in Poyang Lake, the largest freshwater lake in China, using a combination of bulk chemical, optical and Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) techniques. Results show various sources of DOM (autochthonous, allochthonous, and anthropogenic inputs) and significant variations in DOM chemistry across four hydrological periods (the retreating, dry, rising, and flooding periods) in Poyang Lake. During the retreating, rising, and flooding periods, DOM was characterized by higher aromaticity, humification degree, and recalcitrance, and exhibited pronounced allochthonous signatures. In contrast, DOM contained more S-containing molecules and aliphatic compounds during the dry period, displaying relatively stronger autochthonous features. Terrestrial inputs and the lignin-CHOS formation process are likely the primary underlying mechanisms shaping the differences in DOM chemistry in Poyang Lake. Our research demonstrates the significant impacts of hydrological alteration on DOM dynamics, and provides an improved understanding of DOM biogeochemical cycles and carbon cycling in large aquatic systems under global climate change.
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Affiliation(s)
- Lei Xu
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China
| | - Qian Hu
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China
| | - Zetian Liu
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China
| | - Minfei Jian
- College of Life Science, Jiangxi Provincial Key Laboratory of Protection and Utilization of Subtropical Plant Resources, Jiangxi Normal University, Nanchang, 330022, China
| | - Yansong Peng
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China
| | - Ruichang Shen
- Jiangxi Province Key Laboratory of Watershed Ecosystem Change and Biodiversity, Center for Watershed Ecology, School of Life Science, Nanchang University, Nanchang 330031, China; Jiangxi Poyang Lake Wetland Conservation and Restoration National Permanent Scientific Research Base, National Ecosystem Research Station of Jiangxi Poyang Lake Wetland, Nanchang University, Nanchang 330031, China
| | - Wei Liao
- Wetland Research Center, Jiangxi Academy of Forestry, Nanchang, 330032, China.
| | - Aiwen Zhong
- Lushan Botanical Garden, Chinese Academy of Sciences, Jiujiang 332900, China.
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11
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Cheng H, You J, Ma S, Liao K, Hu H, Ren H. 2-Hydroxy-1,4-Naphthoquinone: A Promising Redox Mediator for Minimizing Dissolved Organic Nitrogen and Eutrophication Effects of Wastewater Effluent. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:2870-2880. [PMID: 38181504 DOI: 10.1021/acs.est.3c07261] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2024]
Abstract
Researchers and engineers are committed to finding effective approaches to reduce dissolved organic nitrogen (DON) to meet more stringent effluent total nitrogen limits and minimize effluent eutrophication potential. Here, we provided a promising approach by adding specific doses of 2-hydroxy-1,4-naphthoquinone (HNQ) to postdenitrification bioreactors. This approach of adding a small dosage of 0.03-0.1 mM HNQ effectively reduced the concentrations of DON in the effluent (ANOVA, p < 0.05) by up to 63% reduction of effluent DON with a dosing of 0.1 mM HNQ when compared to the control bioreactors. Notably, an algal bioassay indicated that DON played a dominant role in stimulating phytoplankton growth, thus effluent eutrophication potential in bioreactors using 0.1 mM HNQ dramatically decreased compared to that in control bioreactors. The microbe-DON correlation analysis showed that HNQ dosing modified the microbial community composition to both weaken the production and promote the uptake of labile DON, thus minimizing the effluent DON concentration. The toxic assessment demonstrated the ecological safety of the effluent from the bioreactors using the strategy of HNQ addition. Overall, HNQ is a promising redox mediator to reduce the effluent DON concentration with the purpose of meeting low effluent total nitrogen levels and remarkably minimizing effluent eutrophication effects.
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Affiliation(s)
- Huazai Cheng
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
| | - Jiaqian You
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
| | - Sijia Ma
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
| | - Kewei Liao
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
| | - Haidong Hu
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
| | - Hongqiang Ren
- State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University, Nanjing 210023 Jiangsu, China
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12
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Dopson M, Rezaei Somee M, González-Rosales C, Lui LM, Turner S, Buck M, Nilsson E, Westmeijer G, Ashoor K, Nielsen TN, Mehrshad M, Bertilsson S. Novel candidate taxa contribute to key metabolic processes in Fennoscandian Shield deep groundwaters. ISME COMMUNICATIONS 2024; 4:ycae113. [PMID: 39421601 PMCID: PMC11484514 DOI: 10.1093/ismeco/ycae113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/08/2024] [Revised: 09/06/2024] [Accepted: 09/20/2024] [Indexed: 10/19/2024]
Abstract
The continental deep biosphere contains a vast reservoir of microorganisms, although a large proportion of its diversity remains both uncultured and undescribed. In this study, the metabolic potential (metagenomes) and activity (metatranscriptomes) of the microbial communities in Fennoscandian Shield deep subsurface groundwaters were characterized with a focus on novel taxa. DNA sequencing generated 1270 de-replicated metagenome-assembled genomes and single-amplified genomes, containing 7 novel classes, 34 orders, and 72 families. The majority of novel taxa were affiliated with Patescibacteria, whereas among novel archaea taxa, Thermoproteota and Nanoarchaeota representatives dominated. Metatranscriptomes revealed that 30 of the 112 novel taxa at the class, order, and family levels were active in at least one investigated groundwater sample, implying that novel taxa represent a partially active but hitherto uncharacterized deep biosphere component. The novel taxa genomes coded for carbon fixation predominantly via the Wood-Ljungdahl pathway, nitrogen fixation, sulfur plus hydrogen oxidation, and fermentative pathways, including acetogenesis. These metabolic processes contributed significantly to the total community's capacity, with up to 9.9% of fermentation, 6.4% of the Wood-Ljungdahl pathway, 6.8% of sulfur plus 8.6% of hydrogen oxidation, and energy conservation via nitrate (4.4%) and sulfate (6.0%) reduction. Key novel taxa included the UBA9089 phylum, with representatives having a prominent role in carbon fixation, nitrate and sulfate reduction, and organic and inorganic electron donor oxidation. These data provided insights into deep biosphere microbial diversity and their contribution to nutrient and energy cycling in this ecosystem.
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Affiliation(s)
- Mark Dopson
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - Maryam Rezaei Somee
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - Carolina González-Rosales
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - Lauren M Lui
- Molecular Ecosystems Biology Department, Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States
| | - Stephanie Turner
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
- Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, P.O. Box 7050, 75005 Uppsala, Sweden
| | - Moritz Buck
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, P.O. Box 7050, 75005 Uppsala, Sweden
| | - Emelie Nilsson
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - George Westmeijer
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - Kamal Ashoor
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, 39231 Kalmar, Sweden
| | - Torben N Nielsen
- Molecular Ecosystems Biology Department, Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States
| | - Maliheh Mehrshad
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, P.O. Box 7050, 75005 Uppsala, Sweden
| | - Stefan Bertilsson
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, P.O. Box 7050, 75005 Uppsala, Sweden
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13
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Gao Z, Guo H, Chen D, Yu C, He C, Shi Q, Qiao W, Kersten M. Transformation of dissolved organic matter and related arsenic mobility at a surface water-groundwater interface in the Hetao Basin, China. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 334:122202. [PMID: 37453683 DOI: 10.1016/j.envpol.2023.122202] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 06/26/2023] [Accepted: 07/12/2023] [Indexed: 07/18/2023]
Abstract
Porewater arsenic mobility above the groundwater table has been recognized as a potential cause of arsenic-rich groundwater, but the processing pathways of dissolved organic matter (DOM) in that hyporheic zone and their effect on porewater arsenic release remain poorly understood. To address these issues, two porewater profiles were sampled in a surface water-groundwater interaction zone from the Hetao Basin, China, to monitor the porewater geochemistry and DOM molecular characteristics. The results show that the porewater arsenic, Fe(II), and DOC concentrations were all significantly higher than those of the intruding pond water, and were located above the conservative mixing model lines. This indicates a net release of these solutes from the sediment. By comparing the porewater with pond water DOM, we found that the carboxyl-rich alicyclic molecules (CRAM) were selectively preserved, carbohydrates and aliphatics/proteins were preferentially consumed, and low O/C-ratio compounds with high bioproduction index (I_bioprod) and terrestrial index (I_terr) were produced. The transformation of CHO to CHOS compounds also represented a pathway of recalcitrant DOM production. The produced recalcitrant organic compounds mostly contributed to the elevated porewater DOC concentrations, but their contribution decreased along the filtration path. The consumption of labile DOM compounds would be responsible for Fe(III) hydroxide reduction and arsenic release. The generated recalcitrant DOM may also be a driver of porewater arsenic mobility by acting as electron shuttles. This study highlights the importance of the hyporheic zone in shaping shallow groundwater DOM composition and the potential contribution to arsenic enrichment.
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Affiliation(s)
- Zhipeng Gao
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences (Beijing), Beijing, 100083, PR China; MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, and School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, 100083, PR China
| | - Huaming Guo
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences (Beijing), Beijing, 100083, PR China; MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, and School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, 100083, PR China.
| | - Dou Chen
- MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, and School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, 100083, PR China
| | - Chen Yu
- MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, and School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, 100083, PR China
| | - Chen He
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum, Beijing, 102249, PR China
| | - Quan Shi
- State Key Laboratory of Heavy Oil Processing, China University of Petroleum, Beijing, 102249, PR China
| | - Wen Qiao
- China Institute of Geo-Environment Monitoring, China Geological Survey, Beijing, 100081, PR China
| | - Michael Kersten
- Environmental Geochemistry Group, Institute of Geosciences, Johannes Gutenberg-University, Mainz, 55099, Germany
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14
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Kong Q, Ye L, Pan Y, Zhou Y, Lei Y, Zeng Z, Chen S, Yao L, Zhang X, Westerhoff P, Yang X. Photochemical Transformation of Free Chlorine Induced by Triplet State Dissolved Organic Matter. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023. [PMID: 37428984 DOI: 10.1021/acs.est.3c02458] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/12/2023]
Abstract
Photolysis of free chlorine is an increasingly recognized approach for effectively inactivating microorganisms and eliminating trace organic contaminants. However, the impact of dissolved organic matter (DOM), which is ubiquitous in engineered water systems, on free chlorine photolysis is not yet well understood. In this study, triplet state DOM (3DOM*) was found to cause the decay of free chlorine for the first time. By using laser flash photolysis, the scavenging rate constants of triplet state model photosensitizers by free chlorine at pH 7.0 were determined to be in the range of (0.26-3.33) × 109 M-1 s-1. 3DOM*, acting as a reductant, reacted with free chlorine at an estimated reaction rate constant of 1.22(±0.22) × 109 M-1 s-1 at pH 7.0. This study revealed an overlooked pathway of free chlorine decay during UV irradiation in the presence of DOM. Besides the DOM's light screening ability and scavenging of radicals or free chlorine, 3DOM* played an important role in the decay of free chlorine. This reaction pathway accounted for a significant proportion of the decay of free chlorine, ranging from 23 to 45%, even when DOM concentrations were below 3 mgC L-1 and a free chlorine dose of 70 μM was present during UV irradiation at 254 nm. The generation of HO• and Cl• from the oxidation of 3DOM* by free chlorine was confirmed by electron paramagnetic resonance and quantified by chemical probes. By inputting the newly observed pathway in the kinetics model, the decay of free chlorine in UV254-irradiated DOM solution can be well predicted.
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Affiliation(s)
- Qingqing Kong
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Lei Ye
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Yanheng Pan
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Yangjian Zhou
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Yu Lei
- Key Laboratory of Photochemistry, Institute of Chemistry Chinese Academy of Sciences, Beijing National Laboratory for Molecular Sciences, Beijing 100190, China
| | - Zihan Zeng
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Siqi Chen
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Liaoliao Yao
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Xinran Zhang
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
| | - Paul Westerhoff
- School of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85287-3005, United States
| | - Xin Yang
- Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou 510275, China
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15
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Lopez-Fernandez M, Westmeijer G, Turner S, Broman E, Ståhle M, Bertilsson S, Dopson M. Thiobacillus as a key player for biofilm formation in oligotrophic groundwaters of the Fennoscandian Shield. NPJ Biofilms Microbiomes 2023; 9:41. [PMID: 37349512 DOI: 10.1038/s41522-023-00408-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2021] [Accepted: 06/09/2023] [Indexed: 06/24/2023] Open
Abstract
Biofilm formation is a common adaptation for microbes in energy-limited conditions such as those prevalent in the vast deep terrestrial biosphere. However, due to the low biomass and the inaccessible nature of subsurface groundwaters, the microbial populations and genes involved in its formation are understudied. Here, a flow-cell system was designed to investigate biofilm formation under in situ conditions in two groundwaters of contrasting age and geochemistry at the Äspö Hard Rock Laboratory, Sweden. Metatranscriptomes showed Thiobacillus, Sideroxydans, and Desulforegula to be abundant and together accounted for 31% of the transcripts in the biofilm communities. Differential expression analysis highlighted Thiobacillus to have a principal role in biofilm formation in these oligotrophic groundwaters by being involved in relevant processes such as the formation of extracellular matrix, quorum sensing, and cell motility. The findings revealed an active biofilm community with sulfur cycling as a prominent mode of energy conservation in the deep biosphere.
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Affiliation(s)
- Margarita Lopez-Fernandez
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden.
- Department of Microbiology, Faculty of Sciences, University of Granada, Avenida Fuentenueva s/n, 18071, Granada, Spain.
| | - George Westmeijer
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden
| | - Stephanie Turner
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden
- Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Box 7026, 75007, Uppsala, Sweden
| | - Elias Broman
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden
- Department of Ecology, Environment and Plant Sciences, Stockholm University, Svante Arrhenius väg 20 A, 106 91, Stockholm, Sweden
| | - Magnus Ståhle
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden
| | - Stefan Bertilsson
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Box 7050, SE75007, Uppsala, Sweden
| | - Mark Dopson
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Stuvaregatan 4, 392 31, Kalmar, Sweden
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16
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An S, Mao Z, Chen M, Huang X, Shi L, Xing P, Kong L, Zhou Y, Du Y, Zhang Y. Sunlight irradiation promotes both the chemodiversity of terrestrial DOM and the biodiversity of bacterial community in a subalpine lake. ENVIRONMENTAL RESEARCH 2023; 227:115823. [PMID: 37004851 DOI: 10.1016/j.envres.2023.115823] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Revised: 03/28/2023] [Accepted: 03/30/2023] [Indexed: 05/08/2023]
Abstract
Alpine lake habitats are evolving into subalpine lakes under the scenario of climate change, where the vegetation are promoted due to increasing temperature and precipitation. The abundant terrestrial dissolved organic matter (TDOM) leached from watershed soil into subalpine lakes would undergo strong photochemical reaction due to the high altitude, with the potential to alter DOM composition and affect the bacterial communities. To reveal the transformation of TDOM by both photochemical and microbial processes in a typical subalpine lake, Lake Tiancai (located 200 m below the tree line) was chosen. TDOM was extracted from the surrounding soil of Lake Tiancai and then subjected to the photo/micro-processing for 107 days. The transformation of TDOM was analyzed by Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR MS) and fluorescence spectroscopy, and the shift of bacterial communities was analyzed using 16s rRNA gene sequencing technology. Dissolved organic carbon and light-absorbing components (a350) decay accounted for approximately 40% and 80% of the original, respectively, in the sunlight process, but both less than 20% in the microbial process for 107 days. The photochemical process promoted the chemodiversity as there were ∼7000 molecules after sunlight irradiation, compared to ∼3000 molecules in the original TDOM. Light promoted the production of highly unsaturated molecules and aliphatics, which were significantly associated with Bacteroidota, suggesting that light may influence bacterial communities by regulating the DOM molecules. Carboxylic-rich alicyclic molecules were generated in both photochemical and biological processes, suggesting TDOM was converted to a stable pool over time. Our finding on the transformation of terrestrial DOM and the alternation of bacterial community under the simultaneously photochemical and microbial processes will help to reveal the response of the carbon cycle and lake system structure to climate change for high-altitude lakes.
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Affiliation(s)
- ShiLin An
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - ZhenDu Mao
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Meilian Chen
- Department of Geosciences & Natural Resources, Western Carolina University, Cullowhee, NC 28723, United States
| | - XiuLin Huang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; School of Environmental and Chemical Engineering, Chongqing Three Gorges University, Chongqing, 404020, China
| | - LiMei Shi
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Peng Xing
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - LingYang Kong
- Yunnan Key Laboratory of Plateau Geographical Processes and Environmental Changes, Yunnan Normal University, Kunming, 650500, China
| | - YongQiang Zhou
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - YingXun Du
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China.
| | - YunLin Zhang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China; University of Chinese Academy of Sciences, Beijing, 100049, China
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17
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Hu T, Luo M, Qi Y, He D, Chen L, Xu Y, Chen D. Molecular evidence for the production of labile, sulfur-bearing dissolved organic matter in the seep sediments of the South China Sea. WATER RESEARCH 2023; 233:119732. [PMID: 36801578 DOI: 10.1016/j.watres.2023.119732] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Revised: 02/05/2023] [Accepted: 02/11/2023] [Indexed: 06/18/2023]
Abstract
Cold seeps with methane-rich fluids leaking out of the seafloor usually support massive biomass of chemosynthetic organisms and associated fauna. A substantial amount of methane is converted to dissolved inorganic carbon by microbial metabolism, and this process also releases dissolved organic matter (DOM) into pore water. Here, pore water samples from "Haima cold seeps" sediments and the non-seep reference sediments in the northern South China Sea were analyzed for optical properties and molecular compositions of pore water DOM. Our results showed that the relative abundance of protein-like DOM, H/Cwa and molecular lability boundary percentage (MLBL%) in the seep sediments were significantly higher than those in the reference sediments, indicating that more labile DOM related to unsaturated aliphatic compounds is produced in the seep sediments. Spearman's correlation of the fluoresce and molecular data suggested that the humic-like components (C1 and C2) mainly constituted the refractory compounds (CRAM, highly unsaturated and aromatics compounds). In contrast, the protein-like component (C3) had high H/C ratios featuring high degree of DOM lability. The amount of S-containing formulas (CHOS and CHONS) was greatly elevated in the seep sediments, likely caused by abiotic and biotic sulfurization of DOM in the sulfidic environment. Although the abiotic sulfurization was proposed to have a stabilizing effect on organic matter, our results implied that the biotic sulfurization in the cold seep sediments would increase DOM lability. Overall, the labile DOM accumulated in the seep sediments is closely linked to methane oxidation, which not only support heterotrophic communities and but also likely have an impact on carbon and sulfur cycling in the sediments and the ocean.
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Affiliation(s)
- Tingcang Hu
- College of Geography and Environment, Liaocheng University, Liaocheng, China
| | - Min Luo
- Laboratory for Marine Geology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China; Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai, China.
| | - Yulin Qi
- Institute of Surface-Earth System Science, College of Earth System Science, Tianjin University, Tianjin, China
| | - Ding He
- Department of Ocean Science and Hong Kong Branch of the Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), The Hong Kong University of Science and Technology, Hong Kong, China
| | - Linying Chen
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai, China
| | - Yunping Xu
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai, China
| | - Duofu Chen
- Shanghai Engineering Research Center of Hadal Science and Technology, College of Marine Sciences, Shanghai Ocean University, Shanghai, China.
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18
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Yi B, Liu J, He W, Lü X, Cao X, Chen X, Zeng X, Zhang Y. Optical variations of dissolved organic matter due to surface water - groundwater interaction in alpine and arid Datonghe watershed. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 864:161036. [PMID: 36563761 DOI: 10.1016/j.scitotenv.2022.161036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Revised: 12/14/2022] [Accepted: 12/15/2022] [Indexed: 06/17/2023]
Abstract
The direction and quantity of surface water - groundwater interaction (SGI) in alpine-arid zones can be tracked using multiple tracers. However, few studies have examined whether the optical indices of dissolved organic matter (DOM) can also track SGI. This study used excitation-emission matrix spectroscopy combined with parallel factor analysis (EEM-PARAFAC) to reveal the optical variations in dissolved organic matter (DOM) in groundwater and surface water with various SGIs in the Datonghe watershed. The results showed that the absorbance spectral indices of DOM did not vary with SGI, whereas DOM fluorescence varied with SGI. PARAFAC indicated that groundwater predominantly recharged by precipitation had significantly lower humic-like (C2 and C3) fluorescence than groundwater predominantly recharged by riverine water. Since humic-like substances were more likely to be retained in the aqueous phase than protein-like substances, significantly fewer protein-like substances (C4) were introduced when surface water was recharged to groundwater. This suggests that C4 can be used as an effective indicator to identify the SGI process from surface water to groundwater. Based on the principal component analysis of DOM and hydrochemical indicators, it was concluded that traditional chemical tracers were significantly and positively correlated with humic-like substances C2 and C3. Given that C3 is more stable and persistent in the environment, it could be used to track SGI processes midstream of the watershed. The findings of this study will assist in accurately identifying the processes and mechanisms of SGI on a regional scale and provide a basis for future water resource management and the protection of water ecosystems.
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Affiliation(s)
- Bing Yi
- Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), Beijing 100083, China; Institute of Hydrogeology and Environmental Geology, Chinese Academy of Geological Sciences, Shijiazhuang 050061, China
| | - Jingtao Liu
- Institute of Hydrogeology and Environmental Geology, Chinese Academy of Geological Sciences, Shijiazhuang 050061, China
| | - Wei He
- Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), Beijing 100083, China.
| | - Xiaoli Lü
- China Institute of Geo-Environmental Monitoring, Beijing 100081, China
| | - Xu Cao
- Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), Beijing 100083, China
| | - Xiaorui Chen
- Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), Beijing 100083, China
| | - Xianjiang Zeng
- Beijing Key Laboratory of Water Resources & Environmental Engineering, China University of Geosciences (Beijing), Beijing 100083, China
| | - Yuxi Zhang
- Institute of Hydrogeology and Environmental Geology, Chinese Academy of Geological Sciences, Shijiazhuang 050061, China
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